学術論文 |
- "A Proteorhodopsin-Related Photosensor Expands the Repertoire of Structural Motifs Employed by Sensory Rhodopsins," The Journal of Physical Chemistry B, vol.127, pp7872-7886, Sep. 2023
- Maryam Saliminasab, Yoichi Yamazaki, Alyssa Palmateer, Andrew Harris, Luiz Schubert, Pit Langner, Joachim Heberle, Ana-Nicoleta Bondar, Leonid S. Brown
 [ doi:10.1021/acs.jpcb.3c04032 ]
- "Machine learning-based impedance system for real-time recognition of antibiotic-susceptible bacteria with parallel cytometry.," Sensors and Actaurtors B: Chemical, vol.374, 1 Jan. 2023
- Tang, T, Liu, X, Yuan, Y, Kiya, R, Zhang, T, Yang, Y, Suetsugu, S, Yamazaki, Y, Ota, N, Yamamoto, K, Kamikubo, H, Tanaka, Y, Li, M, Hosokawa, Y., Yalikun, Y.
[ doi:10.1016/j.snb.2022.132698 ]
- "Machine learning-based impedance system for real-time recognition of antibiotic-susceptible bacteria with parallel cytometry ," Sensors and Actuators B: Chemical, pp132698, 30 Oct. 2022
- Tao Tang, Xun Liu, Yapeng Yuan, Ryota Kiya, Tianlong Zhang, Yang Yang, Shiro Suetsugu, Yoichi Yamazaki, Nobutoshi Ota, Koki Yamamoto, Hironari Kamikubo, Yo Tanaka, Ming Li, Yoichiroh Hosokawa
[ doi:10.1016/j.snb.2022.132698 ]
- "Parallel Impedance Cytometry for Real-Time Screening of Bacterial Single Cells from Nano- to Microscale ," ACS sensor, 25 Oct. 2022
- Tao Tang, Xun Liu, Yapeng Yuan, Tianlong Zhang, Ryota Kiya, Yang Yang, Yoichi Yamazaki, Hironari Kamikubo, Yo Tanaka, Ming Li, Yoichiroh Hosokawa, Yaxiaer Yalikun
[ doi:10.1021/acssensors.2c013 ]
- "Shape-based separation of drug-treated Escherichia coli using viscoelastic microfluidics," Lab on a Chip, vol.22, pp 2801-2809, 6 May. 2022
- Tianlong Zhang, Hangrui Liu, Kazunori Okano, Tao Tang, Kazuki Inoue, Yoichi Yamazaki, Hironari Kamikubo, Amy K Cain, Yo Tanaka, David W Inglis, Yoichiroh Hosokawa, Yaxiaer Yalikun, Ming Li
[ doi:10.1039/D2LC00339B ]
- "A unique photochromic UV-A sensor protein, Rc-PYP, interacting with the PYP-binding protein," Physical Chemistry Chemical Physics, vol.23, pp17813-17825, 7 Sep. 2021
- Suhyang Kim, Yusuke Nakasone, Akira Takakado, Yoichi Yamazaki, Hironari Kamikubo, Masahide Terazima
[ doi:10.1039/d1cp02731j ]
- "Structure elements can be predicted using the contact Volume among protein residues," Biophysics and Physicobiology, vol.v18.006, pp50-59, 18 Feb. 2021
- Yasumichi Takase, Yoichi Yamazaki, Yugo Hayashi, Sachiko Toma, Hironari Kamikubo
[ doi:10.2142/biophysico ]
- "Wavelength-Dependent Photoreaction of PYP from Rhodobacter capsulatus," Biochemistry 2020, 17 Dec. 2020
- Suhyang Kim, Yusuke Nakasone, Akira Takakado, Yoichi Yamazaki, Hironari Kamikubo, Masahide Terezima
[ doi:10.1021/acs.biochem.Oc00821 ]
- "Spectroscopic and structural characteristics of a dual-light sensor protein, PYP-phytochrome related protein," Biophysics and Physicobiology, vol.17, pp103-112, 2020.9.1
- Jia-Siang Sum, 山崎 洋一, Keito Yoshida, Kento Yonezawa, 林 有吾, Mikio Kataoka, 上久保 裕生
[ doi:10.2142/biophysico.BSJ-2020015 ]
- "Statistical description of the denatured structure of a single protein, staphylococcal nuclease, by FRET analysis ," Biophysical Reviews, vol.2017, 25 Nov. 2017
- Mariko Yamaguchi, Emi Ohta, Takuya Muto, Takayoshi Watanabe, Takahiro Hohsaka, Yoichi Yamazaki, Hironari Kamikubo, Mikio Kataoka
- "Neutron crystallography of photoactive yellow protein reveals unusual protonation state of Arg52 in the crystal," Scientific Reports, vol.7, pp9361, 24 Aug. 2017
- K. Yonezawa, N. Shimizu, K. Kurihara, Y. Yamazaki, H. Kamikubo, M. Kataoka
- "Intramolecular Interactions That Induce Helical Rearrangement upon Rhodopsin Activation : LIGHT-INDUCED STRUCTURAL CHANGES IN METARHODOPSIN IIa PROBED BY CYSTEINE S-H STRETCHING VIBRATIONS," The Journal of Biological Chemistry, vol.289, pp13792-13800, 1 Apr. 2014
- Yoichi Yamazaki, Tomoko Nagata, Akihisa Terakita, Hideki Kandori, Yoshinori Shichida, Yasushi Imamoto
- "Excited-State Proton Transfer in Fluorescent Photoactive Yellow Protein Containing 7-Hydroxycoumarin," Advanced Materials Reserch, vol.896, pp85-88, 7 Feb. 2014
- Dian Novitasari, Hironari Kamikubo, Youichi Yamazaki, Mariko Yamaguchi, Mikio Kataoka
- "Mapping of the local environmental changes in proteins by cysteine scanning," Biophysics, vol.10, pp1-7, 18 Dec. 2013
- Yoichi Yamazaki, Tomoko Nagata, Akihisa Terakita, Hideki Kandori, Yoshinori Shichida, Yasushi Imamoto
- "Systematic alanine insertion reveals the essential regions that encode structure formation and activity of dihydrofolate reductase," Biophysics, vol.7, pp1, Jan. 2011
- R. Shiba, M. Umeyama, S. Tsukasa, H. Kamikubo, Y. Yamazaki, M. Yamaguchi, M. Iwakura, M. Kataoka
- "Nonlocal Interactions Are Responsible for Tertiary Structure Formation in Staphylococcal Nuclease," Biophys. J., vol.98, pp678-786, 17 Feb. 2010
- Kato, S, Kamikubo, H, Hirano, S, Yamazaki, Y, Mikio Kataoka
[ doi:10.1016/j.bpj.2009.10.048 ]
- "Low-barrier hydrogen bond in photoactive yellow protein," Proc Natl Acad Sci U S A., vol.106, no.2, pp440-444, 13 Jan. 2009
- Yamaguchi, S, Kamikubo, H, Kurihara, K, Kuroki, R, Niimura, N, Shimizu, N, Yamazaki, Y, Mikio Kataoka
[ doi:10.1073/pnas.0811882106 ]
- "Mechanism of induced folding: Both folding before binding and binding before folding can be realized in staphylococcal nuclease mutants," Proteins: Structu. Funct. Bioinformat., vol.72, pp837-847, 15 Aug. 2008
- Onitsuka, M, Kamikubo, H, Yamazaki, Y, Mikio Kataoka
[ doi:10.1002/prot.21978 ]
- "Role of the N-terminal region in the function of the photosynthetic bacterium transcription regulator PpsR," Photochem. Photobiol., vol.84, pp839-844, Jul. 2008
- Yamazaki, Y, Fukusumi, H, Kamikubo, H, Mikio Kataoka
[ doi:10.1111/j.1751-1097.2008.00306.x ]
- "The photoreaction of the photoactive yellow protein domain in the light sensor histidine kinase Ppr is influenced by the C-terminal domains," Photochem. Photobiol., vol.84, pp895-902, Jul. 2008
- Kamikubo, H, Koyama, T, Hayashi, M, Shirai, K, Yamazaki, Y, Imamoto, Y, Mikio Kataoka
[ doi:10.1111/j.1751-1097.2008.00322.x ]
- "Diverse roles of glycine residues conserved in photoactive yellow proteins," Biophys. J., vol.94, pp3620-3628, 1 May. 2008
- Imamoto, Y, Tatsumi, S, Harigai, M, Yamazaki, Y, Kamikubo, H, Mikio Kataoka
[ doi:10.1529/biophysj.107.123414 ]
- "Attempt to simplify the amino-acid sequence of photoactive yellow protein with a set of simple rules," Proteins: Structu. Funct. Bioinformat., vol.67, pp821-833, Jun. 2007
- Shirai, K, Yamazaki, Y, Kamikubo, H, Imamoto, Y, Mikio Kataoka
[ doi:10.1002/prot.21331 ]
- "Characterization of the solution structure of the M intermediate of photoactive yellow protein using high-angle solution X-ray scattering," Biophys. J., vol.92, pp3633-3642, 15 May. 2007
- Kamikubo, H, Shimizu, N, Harigai, M, Yamazaki, Y, Imamoto, Y, Mikio Kataoka
[ doi:10.1529/biophysj.106.097287 ]
- "Array of aromatic amino acid side chains located near the chromophore of photoactive yellow protein," Photochem. Photobiol., vol.83, pp280-285, 28 Mar. 2007
- Morishita, T, Harigai, M, Yamazaki, Y, Kamikubo, H, Mikio Kataoka, Imamoto, Y
[ doi:10.1562/2006-06-15-RA-929 ]
- "Preparation of large crystals of photoactive yellow protein for neutron diffraction and high resolution crystal structure analysis," Photochem. Photobiol., vol.83, pp336-338, 27 Feb. 2007
- Yamaguchi, S, Kamikubo, H, Shimizu, N, Yamazaki, Y, Imamoto, Y, Mikio Kataoka
[ doi:10.1562/2006-07-23-RA-977 ]
- "The crystal structure of the R52Q mutant demonstrates a role for R52 in chromophore pK(a) regulation in photoactive yellow protein," Biochemistry, vol.45(11), pp3542 -3547, 21 Mar. 2006
- Shimizu, N, Kamikubo, H, Yamazaki, Y, Imamoto, Y, Mikio Kataoka
[ doi:10.1021/bi051430a ]
- "Cloning and characterization of nif structural and regulatory genes in the purple sulfur bacterium, Halorhodospira halophila," J. Biosci. Bioeng., vol.101, pp263-270 , Mar. 2006
- Tsuihij, H, Yamazaki, Y, Kamikubo, H, Imamoto, Y, Mikio Kataoka
[ doi:10.1263/jbb.101.263 ]
- "pH-dependent equilibrium between long lived near-UV intermediates of photoactive yellow protein," J Biol Chem., vol.281, pp4318-4325, 17 Feb. 2006
- Shimizu, N, Imamoto, Y, Harigai, M, Kamikubo, H, Yamazaki, Y, Mikio Kataoka
[ doi:10.1074/jbc.M506403200 ]
- "A biosensor in the time domain based on the diffusion coefficient measurement: Intermolecular interaction of an intermediate of photoactive yellow protein," Anal. Chem.,, vol.77, pp6625-6629, 15 Oct. 2005
- Khan, JS, Imamoto, Y, Yamazaki, Y, Mikio Kataoka, Tokunaga, F, Terazima, M
[ doi:10.1021/ac050559n ]
- "Redox-induced protein structural changes in cytochrome bo revealed by Fourier transform infrared spectroscopy and [C-13]Tyr labeling," J.Biol. Chem., vol.280, pp32821, 1 Apr. 2005
- Kandori, H, Nakamura, H, Yamazaki, Y, Mogi, T
[ doi:10.1074/jbc.M502072200 ]
- "Elucidation of information encoded in tryptophan 140 of staphylococcal nuclease," Proteins: Struct. Funct. Bioinformat., vol.58, pp271-277, 1 Feb. 2005
- Hirano, S, Kamikubo, H, Yamazaki, Y, Mikio Kataoka
[ doi:10.1002/prot.20333 ]
- "Role of an N-terminal loop in the secondary structural change of photoactive yellow protein," Biochemistry, vol.42, pp13893-13900, 2 Dec. 2003
- Harigai, M, Imamoto, Y, Kamikubo, H, Yamazaki, Y, Mikio Kataoka
[ doi:10.1021/bi034814e ]
- "Role of C-terminal region of Staphylococcal nuclease for foldability, stability, and activity," Proteins: Struct. Funct. Genet., vol.49, pp255-265, 1 Nov. 2002
- Hirano, S, Mihara, K, Yamazaki, Y, Kamikubo, H, Imamoto, Y, Mikio Kataoka
[ doi:10.1002/prot.10216 ]
- "Local and distant protein structural changes on photoisomerization of the retinal in bacteriorhodopsin," Proc Natl Acad Sci. U S A., vol.97, pp4643, 1 Apr. 2000
- Kandori, H, Kinoshita, N, Yamazaki, Y, Maeda, A, Shichida, Y, Needleman, R, Lanyi, JK, Bizounok, M, Herzfeld, J, Raap, J, Lugtenburg, J
[ doi:10.1073/pnas.080064797 ]
- "Fourier-transform infrared studies on conformation changes in bd-type ubiquinol oxidase from Escherichia coli upon photoreduction of the redox metal centers," J. Biochemistry, vol.125, pp1131, 1 Apr. 1999
- Yamazaki, Y, Kandori, H, Mogi, T
- "Effects of subunit I mutations on redox-linked conformational changes of the Escherichia coli bo-type ubiquinol oxidase revealed by Fourier-transform infrared spectroscopy," J. Biochemistry, vol.126, pp194, 1 Apr. 1999
- Yamazaki, Y, Kandori, H, Mogi, T
- "Interaction of the protonated Schiff base with the peptide backbone of valine 49 and the intervening water molecule in the N photointermediate of bacteriorhodopsin," Biochemistry, vol.37, pp1559, 1 Apr. 1998
- Yamazaki, Y, Kandori, H, Needleman, R, Lanyi, JK, Maeda, A
- "Structural change of threonine 89 upon photoisomerization in bacteriorhodopsin as revealed by polarized FTIR spectroscopy," Biochemistry, vol.38, pp9676, 1 Apr. 1998
- Kandori, H, Kinoshita, N, Yamazaki, Y, Maeda, A, Shichida, Y, Needleman, R, Lanyi, JK, Bizounok, M, Herzfeld, J, Raap, J, Lugtenburg, J
- "Time-resolved Fourier transform infrared study of structural changes in the last steps of the photocycles of Glu-204 and Leu-93 mutants of bacteriorhodopsin," Biochemistry, vol.36, pp5134, 1 Apr. 1997
- Kandori, H, Yamazaki, Y, Hatanaka, M, Needleman, R, Brown, LS, Richter, HT, Lanyi, JK, Maeda, A
- "Hydrogen bonds of water and C=O groups coordinate long-range structural in the L photointermediate of bacteriorhodopsin," Biochemistry, vol.35, pp4063, 1 Apr. 1996
- Yamazaki, Y, Tuzi, S, Saito, H, Kandori, H, Needleman, R, Lanyi, JK, Maeda, A
- "INTERACTION OF TRYPTOPHAN-182 WITH THE RETINAL 9-METHYL GROUP IN THE L-INTERMEDIATE OF BACTERIORHODOPSIN," Biochemistry, vol.34, pp577, 1 Apr. 1995
- YAMAZAKI, Y, SASAKI, J, HATANAKA, M, KANDORI, H, MAEDA, A, NEEDLEMAN, R, SHINADA, T, YOSHIHARA, K, BROWN, LS, LANYI, JK
- "WATER STRUCTURAL-CHANGES AT THE PROTON UPTAKE SITE (THE THR46-ASP96 DOMAIN) IN THE L-INTERMEDIATE OF BACTERIORHODOPSIN," Biochemistry, vol.34, pp7088, 1 Apr. 1995
- YAMAZAKI, Y, HATANAKA, M, KANDORI, H, SASAKI, J, KARSTENS, WFJ, RAAP, J, LUGTENBURG, J, BIZOUNOK, M, HERZFELD, J, NEEDLEMAN, R, LANYI, JK, MAEDA, A
[ doi:10.1021/bi00021a021 ]
- "WATER-MEDIATED PROTON-TRANSFER IN PROTEINS - AN FTIR STUDY OF BACTERIORHODOPSIN," J. Am. Chem. Soc., vol.117, pp2118, 1 Apr. 1995
- KANDORI, H, YAMAZAKI, Y, SASAKI, J, NEEDLEMAN, R, LANYI, JK, MAEDA, A
[ doi:10.1021/ja00112a036 ]
- "THE RETINAL SCHIFF BASE-COUNTERION COMPLEX OF BACTERIORHODOPSIN - CHANGED GEOMETRY DURING THE PHOTOCYCLE IS A CAUSE OF PROTON-TRANSFER TO ASPARTATE-85," Biochemistry, vol.33, pp12001, 1 Apr. 1994
- BROWN, LS, GAT, Y, SHEVES, M, YAMAZAKI, Y, MAEDA, A, NEEDLEMAN, R, LANYI, JK
[ doi:10.1021/bi00206a001 ]
- "ENERGY COUPLING IN AN ION-PUMP - THE REPROTONATION SWITCH OF BACTERIORHODOPSIN," J. Mol. Biol., vol.243, pp621, 1 Apr. 1994
- KATAOKA, M, KAMIKUBO, H, TOKUNAGA, F, BROWN, LS, YAMAZAKI, Y, MAEDA, A, SHEVES, M, NEEDLEMAN, R, LANYI, JK
[ doi:10.1016/0022-2836(94)90037-X ]
- "THE PROTON TRANSFERS IN THE CYTOPLASMIC DOMAIN OF BACTERIORHODOPSIN ARE FACILITATED BY A CLUSTER OF INTERACTING RESIDUES," J. Mol. Biol., vol.239, pp401, 1 Apr. 1994
- BROWN, LS, YAMAZAKI, Y, MAEDA, A, SUN, L, NEEDLEMAN, R, LANYI, JK
[ doi:10.1006/jmbi.1994.1381 ]
- "INTERACTION OF ASPARTATE-85 WITH A WATER MOLECULE AND THE PROTONATED SCHIFF-BASE IN THE L-INTERMEDIATE OF BACTERIORHODOPSIN - A FOURIER-TRANSFORM INFRARED SPECTROSCOPIC STUDY," Biochemistry, vol.33, pp1713, 1 Apr. 1994
- MAEDA, A, SASAKI, J, YAMAZAKI, Y, NEEDLEMAN, R, LANYI, JK
[ doi:10.1021/bi00173a013 ]
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